Multiple sequence alignment - TraesCS1B01G219400

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1B01G219400 chr1B 100.000 2498 0 0 1 2498 396595949 396598446 0.000000e+00 4614
1 TraesCS1B01G219400 chr1B 93.617 94 6 0 1591 1684 580632864 580632957 9.320000e-30 141
2 TraesCS1B01G219400 chr1D 95.872 1526 43 12 1 1516 295185822 295187337 0.000000e+00 2451
3 TraesCS1B01G219400 chr1D 92.576 660 42 5 1842 2498 295274695 295275350 0.000000e+00 941
4 TraesCS1B01G219400 chr1D 88.889 108 9 3 1589 1694 406665073 406664967 2.020000e-26 130
5 TraesCS1B01G219400 chr1A 92.543 1636 61 20 1 1585 368363294 368364919 0.000000e+00 2289
6 TraesCS1B01G219400 chr1A 94.946 653 30 3 1843 2495 368366538 368367187 0.000000e+00 1020
7 TraesCS1B01G219400 chr1A 96.154 130 5 0 1680 1809 368366409 368366538 1.950000e-51 213
8 TraesCS1B01G219400 chr3D 96.512 86 3 0 1597 1682 22679145 22679060 2.590000e-30 143
9 TraesCS1B01G219400 chr3D 96.512 86 3 0 1597 1682 22767813 22767898 2.590000e-30 143
10 TraesCS1B01G219400 chr3D 95.506 89 4 0 1598 1686 436676984 436676896 2.590000e-30 143
11 TraesCS1B01G219400 chr3D 90.625 96 8 1 1598 1692 71371520 71371425 2.610000e-25 126
12 TraesCS1B01G219400 chr5D 94.444 90 5 0 1593 1682 421993598 421993687 3.350000e-29 139
13 TraesCS1B01G219400 chr6D 92.473 93 6 1 1594 1685 7985338 7985430 5.610000e-27 132
14 TraesCS1B01G219400 chr6B 92.391 92 7 0 1591 1682 48874032 48874123 5.610000e-27 132


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1B01G219400 chr1B 396595949 396598446 2497 False 4614 4614 100.000000 1 2498 1 chr1B.!!$F1 2497
1 TraesCS1B01G219400 chr1D 295185822 295187337 1515 False 2451 2451 95.872000 1 1516 1 chr1D.!!$F1 1515
2 TraesCS1B01G219400 chr1D 295274695 295275350 655 False 941 941 92.576000 1842 2498 1 chr1D.!!$F2 656
3 TraesCS1B01G219400 chr1A 368363294 368367187 3893 False 1174 2289 94.547667 1 2495 3 chr1A.!!$F1 2494

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
314 320 0.03582 TCACCCAATTCACGCCCTAC 60.036 55.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2159 3609 0.605589 ACCAACGCCTCTTTGCCTAC 60.606 55.0 0.0 0.0 0.0 3.18 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 90 0.251634 CTCACCCTGCTTCCTTCCTC 59.748 60.000 0.00 0.00 0.00 3.71
182 187 0.238289 AAGCACGCTGAATTCCAACG 59.762 50.000 2.27 6.65 39.99 4.10
216 221 0.392595 CTTCCCCTACTTTCCGCCAC 60.393 60.000 0.00 0.00 0.00 5.01
262 268 1.656652 CCCGCATCTTGATTTCTCGT 58.343 50.000 0.00 0.00 0.00 4.18
269 275 2.328473 TCTTGATTTCTCGTGACGCAG 58.672 47.619 0.00 0.00 0.00 5.18
292 298 2.661718 GGTTTCCTTCCCAGACAACAA 58.338 47.619 0.00 0.00 0.00 2.83
295 301 3.593442 TTCCTTCCCAGACAACAACAT 57.407 42.857 0.00 0.00 0.00 2.71
306 312 4.037803 CAGACAACAACATCACCCAATTCA 59.962 41.667 0.00 0.00 0.00 2.57
314 320 0.035820 TCACCCAATTCACGCCCTAC 60.036 55.000 0.00 0.00 0.00 3.18
374 387 0.682852 CCGTCCTACAACCACCTCAA 59.317 55.000 0.00 0.00 0.00 3.02
442 455 2.232452 CCATGCTCCTAAGTCCTATCGG 59.768 54.545 0.00 0.00 0.00 4.18
560 586 2.995810 AGCTAAAGGCACGAAATCTCGG 60.996 50.000 0.00 0.00 43.38 4.63
568 594 2.959275 CGAAATCTCGGGGAAGACG 58.041 57.895 0.00 0.00 41.57 4.18
569 595 0.527817 CGAAATCTCGGGGAAGACGG 60.528 60.000 0.00 0.00 41.57 4.79
582 608 2.125106 GACGGGCCGATTTCTGCT 60.125 61.111 35.78 7.12 0.00 4.24
583 609 1.143183 GACGGGCCGATTTCTGCTA 59.857 57.895 35.78 0.00 0.00 3.49
603 629 0.604243 ACACGGCGCAAATTAGGTGA 60.604 50.000 10.83 0.00 0.00 4.02
692 718 3.136123 CCCTACGAGTCCGGCGAA 61.136 66.667 9.30 0.00 40.78 4.70
744 770 3.371063 GCGACGGTGAGGGACAGA 61.371 66.667 0.00 0.00 0.00 3.41
903 933 3.172919 GCTCACAGAAAGCGAGCC 58.827 61.111 0.00 0.00 44.70 4.70
944 974 7.750014 AGAAGTCGTAACGCAAAGTTTTAAAAA 59.250 29.630 1.31 0.00 43.86 1.94
964 994 4.332637 GCTGTGGCGCTTGTGGTG 62.333 66.667 7.64 0.00 0.00 4.17
965 995 3.663176 CTGTGGCGCTTGTGGTGG 61.663 66.667 7.64 0.00 0.00 4.61
1514 1566 0.179048 TGACCGCCATGCTTAGATGG 60.179 55.000 0.00 0.00 45.20 3.51
1522 1574 2.289002 CCATGCTTAGATGGAACGCTTC 59.711 50.000 0.00 0.00 45.24 3.86
1544 1596 1.807573 GCGTCCTGCTCTGTAGTGC 60.808 63.158 0.00 0.00 41.73 4.40
1555 1607 1.883926 TCTGTAGTGCTGCGAACTGTA 59.116 47.619 3.14 0.00 0.00 2.74
1559 1611 2.001812 AGTGCTGCGAACTGTATCAG 57.998 50.000 0.00 0.00 37.52 2.90
1585 1637 7.377397 GTCGATGATCTCTAACTGTGATGTTAC 59.623 40.741 0.00 0.00 0.00 2.50
1586 1638 7.067008 TCGATGATCTCTAACTGTGATGTTACA 59.933 37.037 0.00 0.00 0.00 2.41
1597 1649 6.801539 CTGTGATGTTACAGTGTAATTGGT 57.198 37.500 18.35 5.72 42.38 3.67
1599 1651 7.661127 TGTGATGTTACAGTGTAATTGGTAC 57.339 36.000 18.35 13.69 0.00 3.34
1601 1653 7.601130 TGTGATGTTACAGTGTAATTGGTACTC 59.399 37.037 18.35 4.33 33.46 2.59
1602 1654 7.064253 GTGATGTTACAGTGTAATTGGTACTCC 59.936 40.741 18.35 3.66 33.46 3.85
1604 1656 5.544948 TGTTACAGTGTAATTGGTACTCCCT 59.455 40.000 18.35 0.00 33.46 4.20
1606 1658 4.426704 ACAGTGTAATTGGTACTCCCTCT 58.573 43.478 0.00 0.00 33.46 3.69
1608 1660 6.203072 ACAGTGTAATTGGTACTCCCTCTAT 58.797 40.000 0.00 0.00 33.46 1.98
1609 1661 7.359849 ACAGTGTAATTGGTACTCCCTCTATA 58.640 38.462 0.00 0.00 33.46 1.31
1611 1663 8.701895 CAGTGTAATTGGTACTCCCTCTATAAA 58.298 37.037 0.00 0.00 33.46 1.40
1612 1664 8.925338 AGTGTAATTGGTACTCCCTCTATAAAG 58.075 37.037 0.00 0.00 33.46 1.85
1613 1665 8.921205 GTGTAATTGGTACTCCCTCTATAAAGA 58.079 37.037 0.00 0.00 33.46 2.52
1614 1666 9.496710 TGTAATTGGTACTCCCTCTATAAAGAA 57.503 33.333 0.00 0.00 33.46 2.52
1656 1708 5.646577 ACTAAAGTAGTGATCTGAACGCT 57.353 39.130 6.26 6.26 37.69 5.07
1657 1709 5.642686 ACTAAAGTAGTGATCTGAACGCTC 58.357 41.667 4.17 0.00 37.69 5.03
1658 1710 4.792521 AAAGTAGTGATCTGAACGCTCT 57.207 40.909 4.17 0.55 0.00 4.09
1660 1712 4.792521 AGTAGTGATCTGAACGCTCTTT 57.207 40.909 4.17 0.00 0.00 2.52
1661 1713 5.140747 AGTAGTGATCTGAACGCTCTTTT 57.859 39.130 4.17 0.00 0.00 2.27
1662 1714 6.268825 AGTAGTGATCTGAACGCTCTTTTA 57.731 37.500 4.17 0.00 0.00 1.52
1663 1715 6.868622 AGTAGTGATCTGAACGCTCTTTTAT 58.131 36.000 4.17 0.00 0.00 1.40
1664 1716 7.324178 AGTAGTGATCTGAACGCTCTTTTATT 58.676 34.615 4.17 0.00 0.00 1.40
1665 1717 7.819900 AGTAGTGATCTGAACGCTCTTTTATTT 59.180 33.333 4.17 0.00 0.00 1.40
1666 1718 7.066374 AGTGATCTGAACGCTCTTTTATTTC 57.934 36.000 0.00 0.00 0.00 2.17
1667 1719 6.876257 AGTGATCTGAACGCTCTTTTATTTCT 59.124 34.615 0.00 0.00 0.00 2.52
1668 1720 7.389053 AGTGATCTGAACGCTCTTTTATTTCTT 59.611 33.333 0.00 0.00 0.00 2.52
1669 1721 8.017946 GTGATCTGAACGCTCTTTTATTTCTTT 58.982 33.333 0.00 0.00 0.00 2.52
1670 1722 9.214957 TGATCTGAACGCTCTTTTATTTCTTTA 57.785 29.630 0.00 0.00 0.00 1.85
1672 1724 7.507304 TCTGAACGCTCTTTTATTTCTTTACG 58.493 34.615 0.00 0.00 0.00 3.18
1673 1725 6.595794 TGAACGCTCTTTTATTTCTTTACGG 58.404 36.000 0.00 0.00 0.00 4.02
1674 1726 6.424509 TGAACGCTCTTTTATTTCTTTACGGA 59.575 34.615 0.00 0.00 0.00 4.69
1675 1727 6.404712 ACGCTCTTTTATTTCTTTACGGAG 57.595 37.500 0.00 0.00 0.00 4.63
1676 1728 5.350640 ACGCTCTTTTATTTCTTTACGGAGG 59.649 40.000 0.00 0.00 0.00 4.30
1677 1729 5.220605 CGCTCTTTTATTTCTTTACGGAGGG 60.221 44.000 0.00 0.00 0.00 4.30
1678 1730 5.878669 GCTCTTTTATTTCTTTACGGAGGGA 59.121 40.000 0.00 0.00 0.00 4.20
1699 3146 9.566432 GAGGGAGTATTGATTATGATGAAAAGT 57.434 33.333 0.00 0.00 0.00 2.66
1723 3170 5.460646 AGTTGGAAAAATGTCAGCGTAATG 58.539 37.500 0.00 0.00 0.00 1.90
1748 3195 4.523943 GCATACAAGGCATCATCCCATTTA 59.476 41.667 0.00 0.00 0.00 1.40
1756 3203 5.773680 AGGCATCATCCCATTTAAATCTCTG 59.226 40.000 0.00 0.00 0.00 3.35
1832 3279 9.961265 AAAATCATAGCAAATCATACATGTCTG 57.039 29.630 0.00 2.54 0.00 3.51
1833 3280 6.549912 TCATAGCAAATCATACATGTCTGC 57.450 37.500 0.00 3.33 0.00 4.26
1834 3281 6.293698 TCATAGCAAATCATACATGTCTGCT 58.706 36.000 0.00 10.62 39.46 4.24
1835 3282 4.895224 AGCAAATCATACATGTCTGCTG 57.105 40.909 0.00 2.79 37.00 4.41
1836 3283 4.520179 AGCAAATCATACATGTCTGCTGA 58.480 39.130 0.00 2.09 37.00 4.26
1837 3284 4.575236 AGCAAATCATACATGTCTGCTGAG 59.425 41.667 0.00 0.00 37.00 3.35
1838 3285 4.261072 GCAAATCATACATGTCTGCTGAGG 60.261 45.833 0.00 0.00 0.00 3.86
1839 3286 5.121105 CAAATCATACATGTCTGCTGAGGA 58.879 41.667 0.00 0.00 0.00 3.71
1840 3287 4.603989 ATCATACATGTCTGCTGAGGAG 57.396 45.455 0.00 0.00 0.00 3.69
1855 3302 4.307432 CTGAGGAGTACGTTGATTTGTGT 58.693 43.478 0.00 0.00 0.00 3.72
1867 3314 6.015504 CGTTGATTTGTGTACTAAGATGTGC 58.984 40.000 0.00 0.00 0.00 4.57
1868 3315 6.347321 CGTTGATTTGTGTACTAAGATGTGCA 60.347 38.462 0.00 0.00 0.00 4.57
1871 3318 6.368791 TGATTTGTGTACTAAGATGTGCAGTC 59.631 38.462 0.00 0.00 33.52 3.51
1872 3319 5.468540 TTGTGTACTAAGATGTGCAGTCT 57.531 39.130 0.00 0.00 33.52 3.24
1873 3320 6.584185 TTGTGTACTAAGATGTGCAGTCTA 57.416 37.500 2.20 0.00 33.52 2.59
1918 3365 5.078411 AGACCTGTTCATGCTAGTACAAG 57.922 43.478 0.00 0.00 0.00 3.16
2027 3477 3.997064 CTCCTCGCTCAAGCACCCG 62.997 68.421 2.50 0.00 42.21 5.28
2075 3525 2.354704 CGCAAACCTCAGGTCAAGGATA 60.355 50.000 0.00 0.00 37.35 2.59
2104 3554 2.027314 CGGCCTGAGATCAGCGAG 59.973 66.667 0.00 0.00 42.47 5.03
2197 3647 2.349755 GGTTCCGCTGCAGGGTAA 59.650 61.111 26.94 16.81 0.00 2.85
2274 3724 0.390866 CACGAAGGATGTGCTGCTCT 60.391 55.000 0.00 0.00 0.00 4.09
2314 3764 1.536662 ACCCGAGCTTCCCAGAACT 60.537 57.895 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 90 0.685097 TTGTCGACAGGAAGGAAGGG 59.315 55.000 19.11 0.00 0.00 3.95
182 187 2.047560 AAGTTCGTGCGGCCTACC 60.048 61.111 0.00 0.00 0.00 3.18
216 221 0.795698 TTGCATGTCGTGAATGGTCG 59.204 50.000 0.00 0.00 0.00 4.79
262 268 0.034896 GAAGGAAACCCTCTGCGTCA 59.965 55.000 0.00 0.00 32.44 4.35
269 275 1.064825 TGTCTGGGAAGGAAACCCTC 58.935 55.000 0.00 0.00 46.82 4.30
292 298 0.965363 GGGCGTGAATTGGGTGATGT 60.965 55.000 0.00 0.00 0.00 3.06
295 301 0.035820 GTAGGGCGTGAATTGGGTGA 60.036 55.000 0.00 0.00 0.00 4.02
306 312 5.731957 AACAAAATTTATTGGTAGGGCGT 57.268 34.783 0.00 0.00 34.56 5.68
314 320 8.769891 GTCAGGTGGTAAAACAAAATTTATTGG 58.230 33.333 0.00 0.00 34.56 3.16
374 387 2.401583 TGTTGATAATCCAGCGTGCT 57.598 45.000 0.00 0.00 0.00 4.40
460 474 1.064685 CGCCCCTAGGGTTTCTTTCAT 60.065 52.381 26.66 0.00 46.51 2.57
461 475 0.326927 CGCCCCTAGGGTTTCTTTCA 59.673 55.000 26.66 0.00 46.51 2.69
560 586 1.818363 GAAATCGGCCCGTCTTCCC 60.818 63.158 1.63 0.00 0.00 3.97
568 594 0.733150 GTGTTAGCAGAAATCGGCCC 59.267 55.000 0.00 0.00 37.79 5.80
569 595 0.373716 CGTGTTAGCAGAAATCGGCC 59.626 55.000 0.00 0.00 37.79 6.13
582 608 1.465387 CACCTAATTTGCGCCGTGTTA 59.535 47.619 4.18 0.00 0.00 2.41
583 609 0.239879 CACCTAATTTGCGCCGTGTT 59.760 50.000 4.18 0.00 0.00 3.32
603 629 1.861971 GGTTTCGTCGACTTCACCTT 58.138 50.000 14.70 0.00 0.00 3.50
639 665 1.306141 TTCCCTGCTGGAGATCCGT 60.306 57.895 11.88 0.00 46.24 4.69
744 770 3.518998 CATCGCGAGTCGGGGTCT 61.519 66.667 26.79 11.26 40.17 3.85
903 933 3.063725 CGACTTCTAGTCTTCTACGGGTG 59.936 52.174 5.41 0.00 42.92 4.61
944 974 3.289834 CACAAGCGCCACAGCCTT 61.290 61.111 2.29 0.00 38.01 4.35
965 995 4.208686 AGTCGCTCGATTCCGGCC 62.209 66.667 0.00 0.00 36.24 6.13
1522 1574 1.678627 ACTACAGAGCAGGACGCATAG 59.321 52.381 0.00 0.00 46.13 2.23
1544 1596 2.544480 TCGACTGATACAGTTCGCAG 57.456 50.000 5.88 0.00 45.44 5.18
1559 1611 5.826586 ACATCACAGTTAGAGATCATCGAC 58.173 41.667 0.00 0.00 0.00 4.20
1585 1637 6.732896 ATAGAGGGAGTACCAATTACACTG 57.267 41.667 0.00 0.00 43.89 3.66
1586 1638 8.849543 TTTATAGAGGGAGTACCAATTACACT 57.150 34.615 0.00 0.00 43.89 3.55
1587 1639 8.921205 TCTTTATAGAGGGAGTACCAATTACAC 58.079 37.037 0.00 0.00 43.89 2.90
1588 1640 9.496710 TTCTTTATAGAGGGAGTACCAATTACA 57.503 33.333 0.00 0.00 43.89 2.41
1634 1686 5.416326 AGAGCGTTCAGATCACTACTTTAGT 59.584 40.000 1.01 0.00 37.82 2.24
1636 1688 5.899120 AGAGCGTTCAGATCACTACTTTA 57.101 39.130 1.01 0.00 37.82 1.85
1637 1689 4.792521 AGAGCGTTCAGATCACTACTTT 57.207 40.909 1.01 0.00 37.82 2.66
1638 1690 4.792521 AAGAGCGTTCAGATCACTACTT 57.207 40.909 1.01 0.00 37.82 2.24
1639 1691 4.792521 AAAGAGCGTTCAGATCACTACT 57.207 40.909 1.01 0.00 37.82 2.57
1640 1692 7.527084 AATAAAAGAGCGTTCAGATCACTAC 57.473 36.000 1.01 0.00 37.82 2.73
1641 1693 8.035394 AGAAATAAAAGAGCGTTCAGATCACTA 58.965 33.333 1.01 0.00 37.82 2.74
1642 1694 6.876257 AGAAATAAAAGAGCGTTCAGATCACT 59.124 34.615 1.01 0.00 37.82 3.41
1643 1695 7.066374 AGAAATAAAAGAGCGTTCAGATCAC 57.934 36.000 1.01 0.00 37.82 3.06
1644 1696 7.672983 AAGAAATAAAAGAGCGTTCAGATCA 57.327 32.000 1.01 0.00 37.82 2.92
1645 1697 9.479278 GTAAAGAAATAAAAGAGCGTTCAGATC 57.521 33.333 1.01 0.00 35.01 2.75
1646 1698 8.169268 CGTAAAGAAATAAAAGAGCGTTCAGAT 58.831 33.333 1.01 0.00 0.00 2.90
1647 1699 7.359765 CCGTAAAGAAATAAAAGAGCGTTCAGA 60.360 37.037 1.01 0.00 0.00 3.27
1649 1701 6.424509 TCCGTAAAGAAATAAAAGAGCGTTCA 59.575 34.615 1.01 0.00 0.00 3.18
1650 1702 6.824557 TCCGTAAAGAAATAAAAGAGCGTTC 58.175 36.000 0.00 0.00 0.00 3.95
1652 1704 5.350640 CCTCCGTAAAGAAATAAAAGAGCGT 59.649 40.000 0.00 0.00 0.00 5.07
1653 1705 5.220605 CCCTCCGTAAAGAAATAAAAGAGCG 60.221 44.000 0.00 0.00 0.00 5.03
1656 1708 7.012661 ACTCCCTCCGTAAAGAAATAAAAGA 57.987 36.000 0.00 0.00 0.00 2.52
1657 1709 8.959705 ATACTCCCTCCGTAAAGAAATAAAAG 57.040 34.615 0.00 0.00 0.00 2.27
1658 1710 9.169592 CAATACTCCCTCCGTAAAGAAATAAAA 57.830 33.333 0.00 0.00 0.00 1.52
1660 1712 8.081517 TCAATACTCCCTCCGTAAAGAAATAA 57.918 34.615 0.00 0.00 0.00 1.40
1661 1713 7.664552 TCAATACTCCCTCCGTAAAGAAATA 57.335 36.000 0.00 0.00 0.00 1.40
1662 1714 6.555463 TCAATACTCCCTCCGTAAAGAAAT 57.445 37.500 0.00 0.00 0.00 2.17
1663 1715 6.555463 ATCAATACTCCCTCCGTAAAGAAA 57.445 37.500 0.00 0.00 0.00 2.52
1664 1716 6.555463 AATCAATACTCCCTCCGTAAAGAA 57.445 37.500 0.00 0.00 0.00 2.52
1665 1717 7.507956 TCATAATCAATACTCCCTCCGTAAAGA 59.492 37.037 0.00 0.00 0.00 2.52
1666 1718 7.667557 TCATAATCAATACTCCCTCCGTAAAG 58.332 38.462 0.00 0.00 0.00 1.85
1667 1719 7.606135 TCATAATCAATACTCCCTCCGTAAA 57.394 36.000 0.00 0.00 0.00 2.01
1668 1720 7.453439 TCATCATAATCAATACTCCCTCCGTAA 59.547 37.037 0.00 0.00 0.00 3.18
1669 1721 6.951778 TCATCATAATCAATACTCCCTCCGTA 59.048 38.462 0.00 0.00 0.00 4.02
1670 1722 5.780282 TCATCATAATCAATACTCCCTCCGT 59.220 40.000 0.00 0.00 0.00 4.69
1672 1724 8.924511 TTTTCATCATAATCAATACTCCCTCC 57.075 34.615 0.00 0.00 0.00 4.30
1673 1725 9.566432 ACTTTTCATCATAATCAATACTCCCTC 57.434 33.333 0.00 0.00 0.00 4.30
1699 3146 6.205853 ACATTACGCTGACATTTTTCCAACTA 59.794 34.615 0.00 0.00 0.00 2.24
1723 3170 1.610522 GGGATGATGCCTTGTATGCAC 59.389 52.381 0.00 0.00 42.38 4.57
1768 3215 8.284945 ACATTGACATGTATGATTTGCTAGTT 57.715 30.769 14.22 0.00 42.24 2.24
1809 3256 6.940867 AGCAGACATGTATGATTTGCTATGAT 59.059 34.615 24.15 0.00 38.94 2.45
1810 3257 6.204108 CAGCAGACATGTATGATTTGCTATGA 59.796 38.462 24.15 0.00 38.81 2.15
1811 3258 6.204108 TCAGCAGACATGTATGATTTGCTATG 59.796 38.462 24.15 4.24 38.81 2.23
1812 3259 6.293698 TCAGCAGACATGTATGATTTGCTAT 58.706 36.000 24.15 0.00 38.81 2.97
1813 3260 5.673514 TCAGCAGACATGTATGATTTGCTA 58.326 37.500 24.15 1.86 38.81 3.49
1814 3261 4.520179 TCAGCAGACATGTATGATTTGCT 58.480 39.130 24.15 15.79 40.17 3.91
1815 3262 4.261072 CCTCAGCAGACATGTATGATTTGC 60.261 45.833 24.15 14.00 34.62 3.68
1816 3263 5.121105 TCCTCAGCAGACATGTATGATTTG 58.879 41.667 24.15 16.74 0.00 2.32
1817 3264 5.104610 ACTCCTCAGCAGACATGTATGATTT 60.105 40.000 24.15 5.76 0.00 2.17
1818 3265 4.408270 ACTCCTCAGCAGACATGTATGATT 59.592 41.667 24.15 8.28 0.00 2.57
1819 3266 3.966006 ACTCCTCAGCAGACATGTATGAT 59.034 43.478 24.15 15.56 0.00 2.45
1820 3267 3.369175 ACTCCTCAGCAGACATGTATGA 58.631 45.455 24.15 12.45 0.00 2.15
1821 3268 3.815856 ACTCCTCAGCAGACATGTATG 57.184 47.619 16.15 16.15 0.00 2.39
1822 3269 3.316588 CGTACTCCTCAGCAGACATGTAT 59.683 47.826 0.00 0.00 0.00 2.29
1823 3270 2.683362 CGTACTCCTCAGCAGACATGTA 59.317 50.000 0.00 0.00 0.00 2.29
1824 3271 1.474478 CGTACTCCTCAGCAGACATGT 59.526 52.381 0.00 0.00 0.00 3.21
1825 3272 1.474478 ACGTACTCCTCAGCAGACATG 59.526 52.381 0.00 0.00 0.00 3.21
1826 3273 1.840737 ACGTACTCCTCAGCAGACAT 58.159 50.000 0.00 0.00 0.00 3.06
1827 3274 1.269723 CAACGTACTCCTCAGCAGACA 59.730 52.381 0.00 0.00 0.00 3.41
1828 3275 1.540267 TCAACGTACTCCTCAGCAGAC 59.460 52.381 0.00 0.00 0.00 3.51
1829 3276 1.905637 TCAACGTACTCCTCAGCAGA 58.094 50.000 0.00 0.00 0.00 4.26
1830 3277 2.949451 ATCAACGTACTCCTCAGCAG 57.051 50.000 0.00 0.00 0.00 4.24
1831 3278 3.244078 ACAAATCAACGTACTCCTCAGCA 60.244 43.478 0.00 0.00 0.00 4.41
1832 3279 3.123621 CACAAATCAACGTACTCCTCAGC 59.876 47.826 0.00 0.00 0.00 4.26
1833 3280 4.307432 ACACAAATCAACGTACTCCTCAG 58.693 43.478 0.00 0.00 0.00 3.35
1834 3281 4.330944 ACACAAATCAACGTACTCCTCA 57.669 40.909 0.00 0.00 0.00 3.86
1835 3282 5.467705 AGTACACAAATCAACGTACTCCTC 58.532 41.667 0.00 0.00 40.29 3.71
1836 3283 5.464030 AGTACACAAATCAACGTACTCCT 57.536 39.130 0.00 0.00 40.29 3.69
1837 3284 7.086376 TCTTAGTACACAAATCAACGTACTCC 58.914 38.462 4.46 0.00 42.61 3.85
1838 3285 8.584600 CATCTTAGTACACAAATCAACGTACTC 58.415 37.037 4.46 0.00 42.61 2.59
1839 3286 8.086522 ACATCTTAGTACACAAATCAACGTACT 58.913 33.333 0.00 0.00 44.93 2.73
1840 3287 8.160342 CACATCTTAGTACACAAATCAACGTAC 58.840 37.037 0.00 0.00 35.53 3.67
1855 3302 7.793036 TCTCTAGTAGACTGCACATCTTAGTA 58.207 38.462 0.00 0.00 0.00 1.82
1867 3314 9.256477 CTCTGTACAGTATTCTCTAGTAGACTG 57.744 40.741 21.99 12.22 33.89 3.51
1868 3315 8.426489 CCTCTGTACAGTATTCTCTAGTAGACT 58.574 40.741 21.99 0.00 32.51 3.24
1871 3318 9.268268 CTTCCTCTGTACAGTATTCTCTAGTAG 57.732 40.741 21.99 7.66 0.00 2.57
1872 3319 8.990203 TCTTCCTCTGTACAGTATTCTCTAGTA 58.010 37.037 21.99 0.00 0.00 1.82
1873 3320 7.771826 GTCTTCCTCTGTACAGTATTCTCTAGT 59.228 40.741 21.99 0.00 0.00 2.57
1918 3365 5.128468 CGTTGTAACGCTTCACTAGTTTTC 58.872 41.667 4.08 0.00 46.06 2.29
2027 3477 1.328430 CCACCGGGGAGAAGTACCTC 61.328 65.000 4.41 0.00 40.01 3.85
2104 3554 3.314388 CTGCCTTCGTTTCAGCCGC 62.314 63.158 0.00 0.00 0.00 6.53
2159 3609 0.605589 ACCAACGCCTCTTTGCCTAC 60.606 55.000 0.00 0.00 0.00 3.18
2172 3622 3.411351 CAGCGGAACCGACCAACG 61.411 66.667 17.63 0.00 42.83 4.10
2197 3647 1.471676 GGATGTCGAAGTCCGCAATCT 60.472 52.381 1.95 0.00 38.37 2.40
2306 3756 0.814457 CGACTCTCTCCAGTTCTGGG 59.186 60.000 17.37 9.33 0.00 4.45
2314 3764 1.546029 CACAATCACCGACTCTCTCCA 59.454 52.381 0.00 0.00 0.00 3.86


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.